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Created with Raphaël 2.2.05Jan17Dec1611985432128Nov272524222120191817141211108765432131Oct30292827252423222120171615141310987630Sep2926221716151211109Small fixes after unit testingAdded tests to util config methodsAdding IGVTools for creation of TDF files (Wiggle for IGV)Merge branch 'develop' of git.lumc.nl:biopet/biopet into feature-yamsvpUpdate yamsvp pipeline, link filesAdded scala docs to config classremove dirstructure from configRemove the indexing requirement from sambamba, since this does this on the fly since version v0.5.0Added scala docs to config utilsMerge branch 'develop' into feature-gentrapMerge branch 'feature-fastq_sync' of git.lumc.nl:biopet/biopet into feature-fastq_syncMerge branch 'develop' into feature-fastq_syncAdd fetch IDs and slight rewrite of previous commitMerge branch 'develop' of git.lumc.nl:biopet/biopet into feature-seqstat-scalaRefactor seqstatFinished method fetchVCFFrequencyAdd some method stubs to frequency annotatorChange pom versionMerge branch 'release-0.2.0' into developUnmask pipelines and toolsMerge branch 'release-0.2.0' into 'master'v0.2.0v0.2.0Readding VEPNormalizer and adding VCFFreqAnnotator to tools listChange Pom to version 0.2.0Merge branch 'master' into release-0.2.0Merge branch 'feature-documentation' into 'release-0.2.0'Added stub for VCF frequency annotator, see issue #72Fix sambamba markdup file, was writing the the wrong fileadd VEP normalizer as class for use in pipelinesIntelliJ autoimported some weirdness that broke the normalizerRefactored VEPNormalizer toolMerge branch 'develop' into feature-toucanslightly different try-catch formatputted config in general folderMask MergeAlleles toolremoved mkdocs theme and OGE from docsMerge branch 'develop' of git.lumc.nl:biopet/biopet into feature-yamsvpFix for #95changes in docs formatchanges in docs formatdocs added